GREMLIN Database
YAZB - Uncharacterized HTH-type transcriptional regulator YazB
UniProt: O31417 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 69 (59)
Sequences: 650 (585)
Seq/√Len: 76.2

GREMLIN Results:

Legend: The darker and larger the blue dots, the higher coevolution strength.

Residue pairs sorted by coevolution strength:
i j Sco Prob
14_R39_E5.5441.00
9_R63_E2.8151.00
24_F57_L2.7941.00
24_F35_L2.3141.00
22_E32_V2.0671.00
7_G10_I1.7891.00
13_F17_K1.7701.00
38_I45_P1.6651.00
49_I52_D1.5860.99
37_E42_N1.5820.99
30_I35_L1.5150.99
13_F59_I1.4840.99
20_T23_G1.4740.99
34_I38_I1.4650.99
38_I49_I1.4140.99
21_Q36_G1.4050.99
27_A56_V1.3930.99
13_F57_L1.3380.98
30_I38_I1.3240.98
51_Q55_D1.2790.98
38_I43_R1.2710.97
32_V36_G1.2360.97
50_I61_A1.2100.97
13_F53_A1.2010.96
22_E26_K1.1870.96
28_L56_V1.1730.96
36_G40_R1.1510.95
8_R12_A1.0920.94
23_G26_K1.0540.93
31_S34_I1.0180.91
21_Q32_V1.0140.91
54_A61_A0.9830.90
59_I64_L0.9520.88
17_K58_N0.9400.88
7_G14_R0.8660.83
26_K48_A0.8290.80
38_I50_I0.8150.79
33_S37_E0.7930.77
7_G39_E0.7910.77
24_F53_A0.7800.76
21_Q39_E0.7480.73
34_I37_E0.7470.73
48_A52_D0.7460.73
14_R25_A0.7400.72
25_A30_I0.7320.72
54_A64_L0.7290.71
61_A65_A0.7230.71
62_D65_A0.7050.69
22_E30_I0.7040.69
51_Q61_A0.7020.68
14_R19_Y0.7000.68
11_R21_Q0.6920.67
25_A35_L0.6770.66
10_I24_F0.6750.65
21_Q35_L0.6630.64
13_F58_N0.6540.63
25_A28_L0.6490.62
50_I65_A0.6360.61
17_K57_L0.6330.60
10_I35_L0.6210.59
15_K19_Y0.6180.59
23_G27_A0.6130.58
31_S37_E0.6130.58
16_L25_A0.6110.58
28_L35_L0.6110.58
11_R15_K0.6000.56
33_S42_N0.5950.56
30_I49_I0.5910.55
54_A60_S0.5900.55
45_P50_I0.5870.55
47_A58_N0.5810.54
50_I60_S0.5770.53
9_R54_A0.5670.52
11_R39_E0.5650.52
18_G44_L0.5620.52
60_S63_E0.5570.51
41_G48_A0.5510.50
51_Q58_N0.5450.49
33_S62_D0.5350.48
19_Y39_E0.5340.48
44_L53_A0.5310.48
36_G42_N0.5310.48
44_L47_A0.5260.47
10_I53_A0.5190.46
13_F24_F0.5130.45
14_R21_Q0.5130.45
52_D55_D0.5130.45
25_A57_L0.5000.44
Legend: The i and j are positions as given in the UniProt sequence. Only predictions with Prob ≥ 0.7 are listed. For all 3L/2 predictions, click on one of the links below.

Sco = ((raw_sco - min_sco)/(avg_sco - min_sco))/2 + 0.5
Prob = P(contact | Sco, seq80/√len)
seq80 = effective number of sequences, after reducing redundancy to 80% identity

HHsearch Results:
Legend: GREMLIN results (Prob ≥ 0.7) overlaid on top PDB hits. The grey/red filled circles underneath are pdb residue contacts (min distance < 5 Angstroms). The shade of the circles is based on the top 10 (or top 20 if e-value < 1E-20) HHsearch results which uses the overall probability and per-site alignment prob. Inter oligomeric contacts in the pdb are in shades of red.
PDB Chains Cov % HHΔ  
3u3wA 2 0.9565 99.5 0.237 Contact Map
1y9qA 1 1 99.5 0.25 Contact Map
4yarA 2 1 99.5 0.258 Contact Map
4ndwA 2 0.9565 99.5 0.267 Contact Map
4ichA 2 0 99.4 0.281 Contact Map
3ivpA 2 1 99.4 0.282 Contact Map
4y42A 6 1 99.4 0.284 Contact Map
3zhiA 1 0.9275 99.4 0.286 Contact Map
4pu7B 2 0.913 99.4 0.286 Contact Map
2p5tA 2 0.0435 99.4 0.289 Contact Map

Sequence Conservation (Image Generated using WebLogo v3)
Legend: Color is used to show Hydrophobicity (Blue: Hydrophilic, Green: Neutral and Black: Hydrophobic). Amount of gaps is represented by width.

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